DreINT0179862 @ danRer10
Intron Retention
Gene
ENSDARG00000016908 | zgc:171779
Description
zgc:171779 [Source:ZFIN;Acc:ZDB-GENE-071004-38]
Coordinates
chr3:31746106-31746503:-
Coord C1 exon
chr3:31746326-31746503
Coord A exon
chr3:31746224-31746325
Coord C2 exon
chr3:31746106-31746223
Length
102 bp
Sequences
Splice sites
5' ss Seq
TGGGTAAGA
5' ss Score
8.91
3' ss Seq
CCCCCCTTATATACATGCAGATG
3' ss Score
7.76
Exon sequences
Seq C1 exon
AGGACTGGCTATATGAGAGGCCTTCCAACGAGTTCTTCCTGGGTGATTTCATTAATCTTGAGGCTTCAGTAATGTCATACAATCACATTCCTCTGCGAGTGTTTGTTGACAGCTGTGTGGCATCTTCTGATCCTACTGTTGCTAATGCTCTCCGATACTCCTTTATTGAGAATAATGG
Seq A exon
GTAAGATGTCTTTTTGAAGTACCAGTCTTTGCTGTGGTTATGGAAGATCTGATCTGTACCTTTTTTTATTTTTATTTTTTCTCCCCCCTTATATACATGCAG
Seq C2 exon
ATGTCTAGTTGATTCTAAACTCACAGGCTCTAGCTCTAAGTTCATGGCTCGGACTCAAATGGACAAGCTGCACTTTCAGTTGGAGGCCTTCAGATTCCAGCAGGATCTTACAGGAGTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000016908:ENSDART00000076189:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0010018=Zona_pellucida=FE(22.9=100)
A:
NA
C2:
PF0010018=Zona_pellucida=FE(15.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCAACGAGTTCTTCCTGGGT
R:
AAGGCCTCCAACTGAAAGTGC
Band lengths:
245-347
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]